Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,778,934	(T)6→5	intergenic (‑564/+187)	BW25113_RS25705 ← / ← BW25113_RS13825	DUF5507 domain‑containing protein/tRNA‑Ile

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,778,929	0	T	.	100.0%	107.5 / NA	26	intergenic (‑559/+192)	BW25113_RS25705/BW25113_RS13825	DUF5507 domain‑containing protein/tRNA‑Ile
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (10/16);  total (10/16)

AGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCATTTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGTACCAAAACACCA  >  NZ_CP009273/2778841‑2779002                                                                                         |                                                                          aGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCAtt                                                                          >  1:545324/1‑90 (MQ=255)      tataATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCAtttttcc                                                                     >  2:452095/1‑88 (MQ=255)             aaTGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACt                                                             >  2:21734/1‑90 (MQ=255)                   aataCTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGaa                                                       <  1:203347/90‑1 (MQ=255)                    ataCTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAAt                                                      >  2:544613/1‑90 (MQ=255)                    ataCTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAAt                                                      >  1:55296/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                                 >  1:416173/1‑90 (MQ=255)                         ctGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTa                                                 >  2:194077/1‑90 (MQ=255)                           ggCTTTATCGTTAATTACTTAATTCCACATGT‑AGCAATTTGCCCGCTTGGCAAAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGGACTg                                              >  1:552396/1‑90 (MQ=255)                              tttATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                            <  2:322561/90‑1 (MQ=255)                              tttATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                            <  1:452095/90‑1 (MQ=255)                              tttATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                            <  1:111668/90‑1 (MQ=255)                                   cGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                                       <  2:396584/90‑1 (MQ=255)                                   cGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                                       <  1:21734/90‑1 (MQ=255)                                   cGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                                       <  1:82688/90‑1 (MQ=255)                                   cGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATa                                       <  2:177035/90‑1 (MQ=255)                                     ttAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATaaa                                     <  2:211072/90‑1 (MQ=255)                                        aTTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                                  <  2:16173/90‑1 (MQ=255)                                        aTTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                                  <  2:20753/90‑1 (MQ=255)                                        aTTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATAc                                  <  1:379792/90‑1 (MQ=255)                                           aCTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACAtt                               >  1:252184/1‑90 (MQ=255)                                                            aGCAATTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGt              <  2:545324/90‑1 (MQ=255)                                                                aTTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                            >  2:361067/1‑56 (MQ=39)                                                                aTTTGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGAt                                            <  1:361067/56‑1 (MQ=255)                                                                  ttGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGTACCaaa        >  1:419926/1‑90 (MQ=255)                                                                  ttGCCCGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGTACCaaa        <  2:55296/90‑1 (MQ=255)                                                                       cGCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGTACCAAAACAcc   <  2:114161/90‑1 (MQ=255)                                                                        gCTTGGCATAGCAGGCA‑TTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGTACCAAAACACCa  >  2:376735/1‑90 (MQ=255)                                                                                         |                                                                          AGGGGTATAATAAATGATAATACTCTGGCTTTATCGTTAATTACTTAATTCCACATGTAAGCAATTTGCCCGCTTGGCATAGCAGGCATTTTTTCCAGGTACTTTTGAATGAGTACTGATGGATAAATACATTGCAGTGGCGTGCCACGTACCAAAACACCA  >  NZ_CP009273/2778841‑2779002

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑